panelexample: Example of a cancer panel

In gmelloni/PrecisionTrialDrawer: A Tool to Analyze and Design NGS Based Custom Gene Panels

Example of a cancer panel

Description

A data frame containing a cancer panel data.frame to create a CancerPanel object

Usage

data(panelexample)

Format

A data.frame of 6 columns:

1. drug: character vector of drug names or any chemical identifiers

2. gene_symbol: character vector HGNC official gene symbol

3. alteration: a character vector of accepted alteration type, 'SNV', 'CNA', 'expression', 'fusion'

4. exact_alteration: a character vector that identifies the exact alteration depending on alteration value. For example, alteration 'CNA' could correspond to exact_alteration 'amplification' or 'deletion'

5. mutation_specification: a character vector that must be empty if alteration is not 'SNV' and identifies the exact alteration in various format

6. group: a character vector that is useful for custom annotation of each single row in the panel. In the example is used to identify actionable from driver variants

Examples

#Load panelexample and show its structure
data(panelexample)
str(panelexample)

gmelloni/PrecisionTrialDrawer documentation built on March 4, 2023, 1:48 a.m.